Dataset Information

Analysing Time-Stamped Co-Editing Networks in Software Development Teams using git2net.

ABSTRACT: Data from software repositories have become an important foundation for the empirical study of software engineering processes. A recurring theme in the repository mining literature is the inference of developer networks capturing e.g. collaboration, coordination, or communication from the commit history of projects. Many works in this area studied networks of co-authorship of software artefacts, neglecting detailed information on code changes and code ownership available in software repositories. To address this issue, we introduce git2net, a scalable python software that facilitates the extraction of fine-grained co-editing networks in large git repositories. It uses text mining techniques to analyse the detailed history of textual modifications within files. We apply our tool in two case studies using GitHub repositories of multiple Open Source as well as a proprietary software project. Specifically, we use data on more than 1.2 million commits and more than 25,000 developers to test a hypothesis on the relation between developer productivity and co-editing patterns in software teams. We argue that git2net opens up an important new source of high-resolution data on human collaboration patterns that can be used to advance theory in empirical software engineering, computational social science, and organisational studies.

Supplementary information

The online version contains supplementary material available at (10.1007/s10664-020-09928-2).

SUBMITTER: Gote C

PROVIDER: S-EPMC8550015 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature

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Analysing Time-Stamped Co-Editing Networks in Software Development Teams using git2net.

Gote Christoph C Scholtes Ingo I Schweitzer Frank F

Empirical software engineering 20210526 4

Data from software repositories have become an important foundation for the empirical study of software engineering processes. A recurring theme in the repository mining literature is the inference of developer networks capturing e.g. collaboration, coordination, or communication from the commit history of projects. Many works in this area studied networks of <i>co-authorship</i> of software artefacts, neglecting detailed information on code changes and code ownership available in software repos ...[more]

PMID: 34720670

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Project description:MotivationSingle cell transcriptional profiling opens up a new avenue in studying the functional role of cell-to-cell variability in physiological processes. The analysis of single cell expression profiles creates new challenges due to the distributive nature of the data and the stochastic dynamics of gene transcription process. The reconstruction of gene regulatory networks (GRNs) using single cell transcriptional profiles is particularly challenging, especially when directed gene-gene relationships are desired.ResultsWe developed SINCERITIES (SINgle CEll Regularized Inference using TIme-stamped Expression profileS) for the inference of GRNs from single cell transcriptional profiles. We focused on time-stamped cross-sectional expression data, commonly generated from transcriptional profiling of single cells collected at multiple time points after cell stimulation. SINCERITIES recovers directed regulatory relationships among genes by employing regularized linear regression (ridge regression), using temporal changes in the distributions of gene expressions. Meanwhile, the modes of the gene regulations (activation and repression) come from partial correlation analyses between pairs of genes. We demonstrated the efficacy of SINCERITIES in inferring GRNs using in silico time-stamped single cell expression data and single cell transcriptional profiles of THP-1 monocytic human leukemia cells. The case studies showed that SINCERITIES could provide accurate GRN predictions, significantly better than other GRN inference algorithms such as TSNI, GENIE3 and JUMP3. Moreover, SINCERITIES has a low computational complexity and is amenable to problems of extremely large dimensionality. Finally, an application of SINCERITIES to single cell expression data of T2EC chicken erythrocytes pointed to BATF as a candidate novel regulator of erythroid development.Availability and implementationMATLAB and R version of SINCERITIES are freely available from the following websites: http://www.cabsel.ethz.ch/tools/sincerities.html and https://github.com/CABSEL/SINCERITIES. The single cell THP-1 and T2EC transcriptional profiles are available from the original publications (Kouno et al., 2013; Richard et al., 2016). The in silico single cell data are available on SINCERITIES websites.Supplementary informationSupplementary data are available at Bioinformatics online.

Dataset Information

Analysing Time-Stamped Co-Editing Networks in Software Development Teams using git2net.

Supplementary information

Publications

Analysing Time-Stamped Co-Editing Networks in Software Development Teams using git2net.

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